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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATCGACCTGAAGAAGCACCACGAGCCGAAGGTGCTGCTCGACAAGGTCGCCTACTGGACCGTCAAGGCGCTGCGCGTGCCCACTGACATCTTCTTCCAGgtaaccaaccacaactaattttccatcaaagatcatgccaatctattttgctgatcgaaatggatgggaatcaatggaacgattttgcag

Basic information

species Oryza sativa
transcript LOC_Os02g47200.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g47200.1 (Oryza sativa), 5'ss of exon 2
lower sequence: AC233960.1_FGT002 (Zea mays), 5'ss of exon 2
GATCGACCTGAAGAAGCACCACGAGCCGAAGGTGCTGCTCGACAAGGTCGCCTACTGGACCGTCAAGGCGCTGCGCGTGCCCACTGACATCTTCTTCCAGgtaacc---aaccacaactaattttccatcaaagatcatgccaatctattttgctgatcgaaatggatgggaatcaat-------ggaac--gattttgcag-------------------------------------
|||||| || || |  |||||||| || |||||||||||||||||| ||||||| |||||||||||    |||||||||||||| ||||| ||||||||||| | |      | |  | |   || |    || |||  | |  || |     |  | | ||| ||    || |||          |||   |||||| |                                       
GATCGATCTCAACAGACACCACGAACCCAAGGTGCTGCTCGACAAGATCGCCTATTGGACCGTCAAATTACTGCGCGTGCCCACCGACATATTCTTCCAGgtgatccctgctcgccccaaccatttccctgaacatccagtc--tccaagactccaa-caaaacggggcagagtcaccctgctgaagaattggattttccgattactattttgctaacatgacgagttaattgtctcag

upper sequence: LOC_Os02g47200.1 (Oryza sativa), 5'ss of exon 2
lower sequence: EFJ35306 (Selaginella moellendorffii), 5'ss of exon 2
-----------------------------GATCGACCTGAAGAAGCACCACGAGCCGAAGGTGCTGCTCGACAAGGTCGCCTACTGGACCGTCAAGGCGCTGCGCGTGCCCACTGACATCTTCTTCCAGgtaaccaaccacaactaattt---tccatcaaagatcat---gccaatctattttg---ctgatcgaaatggatgggaatcaatggaacgatt---ttgcag-
                              || || || || |||||||||   ||   |  | |  | |||||| |||||||||||||||| || ||| ||||  ||||||| ||||| |||||||||| ||   | |        |||   ||| |  || || |    ||   | ||| |||   |    ||||     |||| |||||  ||    ||   ||||   
CCTACCGATGCTTACACTCCAGATGTGAGCATTGATCTCAAAAAGCACCACACTCCACTGTCGTTCGTGGACAAGTTCGCCTACTGGACCgtgaaagcgatgcgtttgcccacagacattttcttccaggcaagatatctttctctctttctatcctttgaatatgaatgagcatgtttatgttgaatccttgcgaagctcctggggatcaaacgagtttttagtttgctag

upper sequence: LOC_Os02g47200.1 (Oryza sativa), 5'ss of exon 2
lower sequence: EFJ27318 (Selaginella moellendorffii), 5'ss of exon 2
-----------------------------GATCGACCTGAAGAAGCACCACGAGCCGAAGGTGCTGCTCGACAAGGTCGCCTACTGGACCGTCAAGGCGCTGCGCGTGCCCACTGACATCTTCTTCCAGgtaaccaaccacaactaattt-------tccatcaaagatcat---gccaatctattttg---ctgatcgaaatggatgggaatcaatggaacgatt---ttgcag----------------------------------
                              || || || || |||||||||   ||   |  | |  | |||||| |||||||||||||||| || ||| ||||  ||||||| ||||| |||||||||| ||   | |     |  |||       ||  |  || || |    ||   | ||| |||   |    |||| |   |||| |||||  ||    ||   ||||                                    
CCTTCCGATGCTTACACTCCAGATGTGAGCATTGATCTCAAAAAGCACCACACTCCACTGTCGTTCGTGGACAAGTTCGCCTACTGGACCgtgaaagcgatgcgtttgcccacagacattttcttccaggcaagatatctttctttctttctttctatcttttgaatatgaatgagcatgtttatgttgaatccttgcgaagttcctggggatcaaacgagtttttagtttgctagtcttataaacttggactgattttatttttgcag

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|33682633|gb|CF310872.1|CF310872
EST:     CCTACTGGACCGTCAAGGCGCTGCGCGTGCCCACTGACATCTTCTTCCAG                         AGGAGGTACGGGTGCCGCGCGATGATGCTGGAGACGGTGGCGGCGGTGCCG
genomic: CCTACTGGACCGTCAAGGCGCTGCGCGTGCCCACTGACATCTTCTTCCAGgtaaccaacc ... gattttgcagAGGAGGTACGGGTGCCGCGCGATGATGCTGGAGACGGTGGCGGCGGTGCCG